Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 19 of 345
Found at i:6422860 original size:67 final size:67
Alignment explanation
Indices: 6422752--6422905 Score: 290
Period size: 67 Copynumber: 2.3 Consensus size: 67
6422742 CACCACAGAA
6422752 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
6422817 AG
66 AG
* *
6422819 ATTGCAGCGAGGCTGCCAGATATTTTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
6422884 AG
66 AG
6422886 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
6422906 ACGCTTCCTC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 85 1.00
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
AG
Found at i:6423169 original size:26 final size:27
Alignment explanation
Indices: 6423140--6423201 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
6423130 TGGTAATTTT
6423140 ACCCCACA-AGGTATCTCAGTAATTCC
1 ACCCCACAGAGGTATCTCAGTAATTCC
* * * * *
6423166 ACCCTACAGGGGTATTTTAGTAATTCT
1 ACCCCACAGAGGTATCTCAGTAATTCC
*
6423193 ACCCTACAG
1 ACCCCACAG
6423202 GGGTGTTTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
ACCCCACAGAGGTATCTCAGTAATTCC
Found at i:6423187 original size:27 final size:27
Alignment explanation
Indices: 6423157--6423405 Score: 281
Period size: 27 Copynumber: 9.3 Consensus size: 27
6423147 AAGGTATCTC
*
6423157 AGTAATTCCACCCTACAGGGGTATTTT
1 AGTAATTCTACCCTACAGGGGTATTTT
* *
6423184 AGTAATTCTACCCTACAGGGGTGTTTC
1 AGTAATTCTACCCTACAGGGGTATTTT
* * * *
6423211 GGTAATTCTACCCTATATGGGTA-TTG
1 AGTAATTCTACCCTACAGGGGTATTTT
* *
6423237 CGATAATTCTACCCTACAGGGGTATTTC
1 AG-TAATTCTACCCTACAGGGGTATTTT
* *
6423265 GGTAATTCTACCCTACAGGGGTA-TTC
1 AGTAATTCTACCCTACAGGGGTATTTT
*
6423291 GGTAATTCTACCCTACTA-GGGTATTTT
1 AGTAATTCTACCCTAC-AGGGGTATTTT
*
6423318 AGTAATTCTACCCTACAAGGGTATTTT
1 AGTAATTCTACCCTACAGGGGTATTTT
* **
6423345 AGTAATTTTA-CAAACTAGGGGTATTTT
1 AGTAATTCTACCCTAC-AGGGGTATTTT
* *
6423372 GGTAATTCTACCCTATAGGGGTATTTT
1 AGTAATTCTACCCTACAGGGGTATTTT
6423399 AGTAATT
1 AGTAATT
6423406 TCACAATCGA
Statistics
Matches: 190, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
26 31 0.16
27 154 0.81
28 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
AGTAATTCTACCCTACAGGGGTATTTT
Found at i:6423367 original size:134 final size:134
Alignment explanation
Indices: 6423131--6423397 Score: 333
Period size: 134 Copynumber: 2.0 Consensus size: 134
6423121 GGGGCAAAAT
*
6423131 GGTAATTTTACCCCACAAGGTATCTCAGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
1 GGTAATTCTACCCCACAAGGTATCTCAGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
* * * ** *
6423196 CTACAGGGGTGTTTCGGTAATTCTACCCTATATGGGTATTGCGATAATTCTACCCTACAGGGGTA
66 CTACAAGGGTATTTCAGTAATTCTACCAAATAGGGGTATTGCGATAATTCTACCCTACAGGGGTA
6423261 TTTC
131 TTTC
* * * *
6423265 GGTAATTCTACCCTACAGGGGTAT-TCGGTAATTCTACCCTACTA-GGGTATTTTAGTAATTCTA
1 GGTAATTCTACCCCACA-AGGTATCTCAGTAATTCCACCCTAC-AGGGGTATTTTAGTAATTCTA
* * ** * *
6423328 CCCTACAAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTCTACCCTATAGGG
64 CCCTACAAGGGTATTTCAGTAATTCTACCAAA-TAGGGGTATTGCGATAATTCTACCCTACAGGG
6423392 GTATTT
128 GTATTT
6423398 TAGTAATTTC
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
133 2 0.02
134 105 0.93
135 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (134 bp):
GGTAATTCTACCCCACAAGGTATCTCAGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
CTACAAGGGTATTTCAGTAATTCTACCAAATAGGGGTATTGCGATAATTCTACCCTACAGGGGTA
TTTC
Found at i:6423418 original size:27 final size:26
Alignment explanation
Indices: 6423309--6423418 Score: 80
Period size: 27 Copynumber: 4.1 Consensus size: 26
6423299 TACCCTACTA
** *
6423309 GGGTATTTTAGTAA-TTCTACCCTACAA
1 GGGTATTTTAGTAATTTC-ACAAT-CAG
* *
6423336 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTCACAATC-AG
* * *
6423363 GGGTATTTTGGTAATTCTACCCTAT-AG
1 GGGTATTTTAGTAATT-T-CACAATCAG
6423390 GGGTATTTTAGTAATTTCACAATCGAG
1 GGGTATTTTAGTAATTTCACAATC-AG
6423417 GG
1 GG
6423419 TAAAACGGTA
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
25 4 0.06
26 2 0.03
27 53 0.83
28 3 0.05
29 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTCACAATCAG
Found at i:6423428 original size:134 final size:134
Alignment explanation
Indices: 6423158--6423431 Score: 297
Period size: 134 Copynumber: 2.0 Consensus size: 134
6423148 AGGTATCTCA
* * *
6423158 GTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTGTTTCGGTAATTCTACC
1 GTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
** * * **
6423223 CTATATGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTA
66 AAATAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAATACAGGGGTA
**
6423288 TTCG
131 AACG
* * *
6423292 GTAATTCTACCCTACTA-GGGTATTTTAGTAATTCTACCCTACAAGGGTATTTTAGTAATTTTA-
1 GTAATTCCACCCTAC-AGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
** * * *
6423355 CAAACTAGGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTTAGTAATT-TCACAAT-C-GAG
65 CAAA-TAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCT-ACAATACAG-G
6423417 GGTAAAACG
127 GGT-AAACG
6423426 GTAATT
1 GTAATT
6423432 TTGTAAATCA
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
132 1 0.01
133 8 0.07
134 106 0.91
135 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (134 bp):
GTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
AAATAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACAATACAGGGGTA
AACG
Found at i:6423440 original size:27 final size:27
Alignment explanation
Indices: 6423410--6423827 Score: 372
Period size: 27 Copynumber: 15.4 Consensus size: 27
6423400 GTAATTTCAC
**
6423410 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * * *
6423437 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * *
6423464 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*** *
6423491 AATCGAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* *** **
6423517 CCAGTCGAGGGTATTTTAGTAATTTTACA
1 --AATCGAGGGTAAAATAGTAATTTTGTA
* *** **
6423546 AATCAGGGGGTATTTTAGTAATTTTACA
1 AATC-GAGGGTAAAATAGTAATTTTGTA
* *** *
6423574 AA-CCAGGGGTATTTTAGTAATTTTCTA
1 AATCGA-GGGTAAAATAGTAATTTTGTA
* * *
6423601 AATCGAGGGTAAAATGGTAATTCTCTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * * *
6423628 AATCGAGGGTAAAATGGTAAATCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* **
6423655 AATCGAGGGTAGAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
6423682 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * * *
6423709 ATTCAAGGGTAAAATAGTAACTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
6423736 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
6423763 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
6423790 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
6423817 AATTGAGGGTA
1 AATCGAGGGTA
6423828 CTTTGATAAT
Statistics
Matches: 338, Mismatches: 47, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 288 0.85
28 47 0.14
29 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTGTA
Found at i:6423549 original size:55 final size:54
Alignment explanation
Indices: 6423479--6423611 Score: 144
Period size: 55 Copynumber: 2.4 Consensus size: 54
6423469 AGGGTAAAAC
* * * * **
6423479 AGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACCAGTC-GAGGGTATTTT
1 AGTAATTTTACAAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTTT
* *
6423534 AGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AGTAATTTTACAAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTT
6423589 AGTAATTTT-CTAAATCGAGGGTA
1 AGTAATTTTAC-AAATCGAGGGTA
6423612 AAATGGTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
54 7 0.11
55 45 0.68
56 14 0.21
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTT
Found at i:6423556 original size:28 final size:27
Alignment explanation
Indices: 6423525--6423597 Score: 128
Period size: 28 Copynumber: 2.7 Consensus size: 27
6423515 TACCAGTCGA
*
6423525 GGGTATTTTAGTAATTTTACAAATCAGG
1 GGGTATTTTAGTAATTTTACAAACCA-G
6423553 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAG
6423580 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
6423598 CTAAATCGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 19 0.43
28 25 0.57
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAG
Found at i:6423609 original size:28 final size:27
Alignment explanation
Indices: 6423390--6423973 Score: 206
Period size: 27 Copynumber: 21.6 Consensus size: 27
6423380 TACCCTATAG
6423390 GGGTATTTTAGTAA-TTTC-ACAATCGA
1 GGGTATTTTAGTAATTTTCTA-AATCGA
***** * *
6423416 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTATTTTAGTAATTTTCTAAATCGA
**** * *
6423443 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
**** * *
6423470 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
* * *
6423497 GGGTACTTTGGTAATTTT-TACCAGTCGA
1 GGGTATTTTAGTAATTTTCTA--AATCGA
*
6423525 GGGTATTTTAGTAATTTTAC-AAATCAGG
1 GGGTATTTTAGTAATTTT-CTAAATC-GA
*
6423553 GGGTATTTTAGTAATTTTAC-AAA-CCA
1 GGGTATTTTAGTAATTTT-CTAAATCGA
6423579 GGGGTATTTTAGTAATTTTCTAAATCGA
1 -GGGTATTTTAGTAATTTTCTAAATCGA
*** * *
6423607 GGGTAAAATGGTAATTCTCTAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
*** * * * *
6423634 GGGTAAAATGGTAAATCTATAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
***** *
6423661 GGGTAGAACGGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
*** * * *
6423688 GGGTAAAATAGTAATTTTGTAATTCAA
1 GGGTATTTTAGTAATTTTCTAAATCGA
*** * * *
6423715 GGGTAAAATAGTAACTCTGTAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
*** *
6423742 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
*** *
6423769 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
*** * * *
6423796 GGGTAAAATGGTAATTTTGTAAATTGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
* **
6423823 GGGTACTTT-GATAATTTTAC-ATGTCGA
1 GGGTATTTTAG-TAATTTT-CTAAATCGA
* *
6423850 GGGTATTTCAATAATTTTGC-AAA-CTGA
1 GGGTATTTTAGTAATTTT-CTAAATC-GA
*
6423877 GGGTA-TTTCGATAATTTTAC-AAATCGA
1 GGGTATTTTAG-TAATTTT-CTAAATCGA
* ** *
6423904 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTTAGTAATTTTCTAAATCGA
* * *
6423931 GGGTACTTTGGTAATTTTAC-AACT-GA
1 GGGTATTTTAGTAATTTT-CTAAATCGA
*
6423957 GGATATTTTAGTAATTT
1 GGGTATTTTAGTAATTT
6423974 GGTAAACTAA
Statistics
Matches: 460, Mismatches: 79, Indels: 38
0.80 0.14 0.07
Matches are distributed among these distances:
26 32 0.07
27 375 0.82
28 52 0.11
29 1 0.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTCTAAATCGA
Found at i:6423657 original size:191 final size:189
Alignment explanation
Indices: 6423335--6423692 Score: 506
Period size: 191 Copynumber: 1.9 Consensus size: 189
6423325 CTACCCTACA
* ** *
6423335 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTTA
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTACCAAACAGGGGTATTTTA
* * *
6423400 GTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAA
66 GTAATTTCACAATCGAGGGTAAAACGGTAATTCTCTAAATCAAGGGTAAAACAGTAAATCTATAA
6423465 ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACCAGTCG
131 ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACCAGTCG
*
6423524 AGGGTATTTTAGTAATTTTACAAA-TCAGGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATT
1 AGGGTATTTTAGTAATTTTACAAACT-A-GGGGTATTTTAGTAATTCTACCAAA-CAGGGGTATT
* * **
6423587 TTAGTAATTTTCTA-AATCGAGGGTAAAATGGTAATTCTCTAAATCGAGGGTAAAATGGTAAATC
63 TTAGTAA-TTTC-ACAATCGAGGGTAAAACGGTAATTCTCTAAATCAAGGGTAAAACAGTAAATC
* * * *
6423651 TATAAATCGAGGGTAGAACGGTAATTTTGTAAATCGAGGGTA
126 TATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
6423693 AAATAGTAAT
Statistics
Matches: 148, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
188 1 0.01
189 27 0.18
190 34 0.23
191 85 0.57
192 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (189 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTACCAAACAGGGGTATTTTA
GTAATTTCACAATCGAGGGTAAAACGGTAATTCTCTAAATCAAGGGTAAAACAGTAAATCTATAA
ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACCAGTCG
Found at i:6423850 original size:54 final size:54
Alignment explanation
Indices: 6423401--6423952 Score: 230
Period size: 54 Copynumber: 10.2 Consensus size: 54
6423391 GGTATTTTAG
* * * * ****
6423401 TAATTTCAC-AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTA-AAACA
1 TAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
* * * * * *
6423453 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGG
1 -TAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
* * ** * ** * *
6423508 TAATTTTTACCAGTCGAGGGTATTTTAGTAATTTTACAAATCAGGGGGTA-TTTTA
1 TAA-TTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATC-GAGGGTACTTTGA
* ** * * *** *
6423563 GTAATTTTACAAA-CCAGGGGTATTTTAGTAATTTTCTAAATCGAGGGTAAAATGG
1 -TAATTTTACAAATCGA-GGGTAAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
* * * * * **** *
6423618 TAATTCT-CTAAATCGAGGGTAAAAT-GGTAAATCTATAAATCGAGGGTAGAACGG
1 TAATTTTAC-AAATCGAGGGT-AAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
** * * ***
6423672 TAATTTTGTAAATCGAGGGTAAAAT-AGTAATTTTGTAATTCAAGGGTAAAAT-A
1 TAATTTTACAAATCGAGGGT-AAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
* * ** ***
6423725 GTAACTCTGTAAATCGAGGGTAAAAT-AGTAATTTTGTAAATCGAGGGTAAAAT-A
1 -TAATTTTACAAATCGAGGGT-AAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
** * *
6423779 GTAATTTTGTAAATCGAGGGTAAAAT-GGTAATTTTGTAAATTGAGGGTACTTTGA
1 -TAATTTTACAAATCGAGGGT-AAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
** ** * *
6423834 TAATTTTACATGTCGAGGGTATTTCAATAATTTTGCAAA-CTGAGGGTA-TTTCGA
1 TAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATC-GAGGGTACTTT-GA
* ** ** * *
6423888 TAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGAGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
6423942 TAATTTTACAA
1 TAATTTTACAA
6423953 CTGAGGATAT
Statistics
Matches: 395, Mismatches: 86, Indels: 35
0.77 0.17 0.07
Matches are distributed among these distances:
53 12 0.03
54 303 0.77
55 71 0.18
56 9 0.02
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTACTTTGA
Found at i:6429218 original size:2 final size:2
Alignment explanation
Indices: 6429206--6429244 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6429196 TGTGATTAAT
*
6429206 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6429245 GCATGTGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6434092 original size:13 final size:13
Alignment explanation
Indices: 6434074--6434099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6434064 TCGGCAGGGA
6434074 CACGCCCGTGTGC
1 CACGCCCGTGTGC
6434087 CACGCCCGTGTGC
1 CACGCCCGTGTGC
6434100 TATTATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.46, G:0.31, T:0.15
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:6434677 original size:18 final size:18
Alignment explanation
Indices: 6434622--6434685 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
6434612 TAAATAAATG
* *
6434622 TACTGAATAATTGACTAT
1 TACTGAATAAATGACTGT
*
6434640 TACTGAA-AGACTGACTGT
1 TACTGAATA-AATGACTGT
*
6434658 TACTGAATAAATGACCGT
1 TACTGAATAAATGACTGT
*
6434676 TATTGAATAA
1 TACTGAATAA
6434686 CCGATTGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 1 0.03
18 37 0.95
19 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:6438079 original size:32 final size:32
Alignment explanation
Indices: 6438043--6438133 Score: 123
Period size: 32 Copynumber: 2.8 Consensus size: 32
6438033 GAGCTGTACA
6438043 TTCCTTTCCAAGTGGTACACACAAAGTATACC
1 TTCCTTTCCAAGTGGTACACACAAAGTATACC
* *
6438075 TTCCTTTTCATA-TGGTATACACAAAGTATACC
1 TTCCTTTCCA-AGTGGTACACACAAAGTATACC
*
6438107 TAACCTTTCCAAGT-GTACACACAAAGT
1 T-TCCTTTCCAAGTGGTACACACAAAGT
6438134 GTACATAGTC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
32 42 0.82
33 9 0.18
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (32 bp):
TTCCTTTCCAAGTGGTACACACAAAGTATACC
Found at i:6438879 original size:20 final size:22
Alignment explanation
Indices: 6438837--6438884 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
6438827 TGTATAAATG
*
6438837 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
6438859 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
6438879 AATTTA
1 -ATTTA
6438885 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:6439357 original size:12 final size:13
Alignment explanation
Indices: 6439331--6439357 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6439321 AGACACATAA
6439331 TTGATAAAAATTT
1 TTGATAAAAATTT
6439344 TTGATAAAAATTT
1 TTGATAAAAATTT
6439357 T
1 T
6439358 CATGCAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTGATAAAAATTT
Found at i:6442526 original size:30 final size:30
Alignment explanation
Indices: 6442481--6442540 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6442471 ATTTAATACG
*
6442481 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
6442511 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
6442541 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:6447775 original size:21 final size:21
Alignment explanation
Indices: 6447751--6447791 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6447741 TCATCAGATC
*
6447751 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
6447772 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
6447792 AGGTGGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:6450057 original size:30 final size:30
Alignment explanation
Indices: 6450012--6450071 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6450002 ATTTAATACG
*
6450012 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
6450042 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
6450072 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:6452661 original size:39 final size:40
Alignment explanation
Indices: 6452603--6452703 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
6452593 AAATTGAATG
* *
6452603 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
6452642 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
6452682 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
6452704 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:6452696 original size:40 final size:40
Alignment explanation
Indices: 6452603--6452785 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
6452593 AAATTGAATG
* * * * *
6452603 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
6452642 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
6452682 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
6452722 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
6452762 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
6452786 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:6460582 original size:40 final size:38
Alignment explanation
Indices: 6460412--6460599 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
6460402 TGAGAAATTG
* * * *
6460412 AATG-ATATCCGGGCTAAGCCCCAAAGACAATTATGCTGAA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
6460452 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
6460489 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
6460529 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
6460569 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
6460600 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 4 0.03
40 109 0.91
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:6460624 original size:80 final size:80
Alignment explanation
Indices: 6460458--6460644 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
6460448 TGAAAATTAT
* * *
6460458 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
* *
6460523 CGTGCAAGTTGTTAA
66 CGTGCAAGTTATCAA
* * * * * *
6460538 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
* **
6460602 TGGTGCGGGTTATCATA
65 TCGTGCAAGTTATCA-A
* * *
6460619 A-CCGGGCTATGTCCCGAAGGCGATTG
1 ATCCGGGCTAAGACCCGAAGGCAATTG
6460645 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTATCAA
Found at i:6462049 original size:21 final size:21
Alignment explanation
Indices: 6462025--6462065 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6462015 TTAATATCTA
6462025 TTTCGAGAGTAAAAATAACTC
1 TTTCGAGAGTAAAAATAACTC
6462046 TTTCGAGAGTAAAAATAACT
1 TTTCGAGAGTAAAAATAACT
6462066 TACTCTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (21 bp):
TTTCGAGAGTAAAAATAACTC
Found at i:6469088 original size:22 final size:22
Alignment explanation
Indices: 6469060--6469104 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6469050 GAGACCATTG
6469060 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
6469082 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
6469104 T
1 T
6469105 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:6473662 original size:22 final size:22
Alignment explanation
Indices: 6473634--6473678 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6473624 AGGGGGAGTG
6473634 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
6473656 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
6473678 T
1 T
6473679 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:6475649 original size:2 final size:2
Alignment explanation
Indices: 6475642--6475676 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6475632 GTGCTCAAAC
6475642 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6475677 ATCCTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6477340 original size:21 final size:21
Alignment explanation
Indices: 6477316--6477362 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6477306 CCCCAAACAC
* *
6477316 TAAACCCCAAATCCTAGATCA
1 TAAACCCCAAATCATAGATAA
**
6477337 TAAACCTTAAATCATAGATAA
1 TAAACCCCAAATCATAGATAA
6477358 TAAAC
1 TAAAC
6477363 TTACACCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.23
Consensus pattern (21 bp):
TAAACCCCAAATCATAGATAA
Found at i:6477787 original size:21 final size:21
Alignment explanation
Indices: 6477763--6477802 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6477753 CCGTATCCCT
*
6477763 ATAAACCCTAAATCATAAAGG
1 ATAAACCATAAATCATAAAGG
*
6477784 ATAAACTATAAATCATAAA
1 ATAAACCATAAATCATAAA
6477803 CCCTAAACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAAACCATAAATCATAAAGG
Found at i:6477809 original size:21 final size:21
Alignment explanation
Indices: 6477771--6477810 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6477761 CTATAAACCC
**
6477771 TAAATCATAAAGGATAAACTA
1 TAAATCATAAACCATAAACTA
*
6477792 TAAATCATAAACCCTAAAC
1 TAAATCATAAACCATAAAC
6477811 CCCTGACCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAATCATAAACCATAAACTA
Found at i:6477874 original size:15 final size:15
Alignment explanation
Indices: 6477829--6477876 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
6477819 ATTGACCCCT
* *
6477829 AACCCTTAAACCATA
1 AACCCATAATCCATA
6477844 AA-CCATAATCTC-TA
1 AACCCATAATC-CATA
6477858 AACCCATAATCCATA
1 AACCCATAATCCATA
6477873 AACC
1 AACC
6477877 TTAAAATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:6477881 original size:22 final size:20
Alignment explanation
Indices: 6477832--6477933 Score: 57
Period size: 22 Copynumber: 4.8 Consensus size: 20
6477822 GACCCCTAAC
6477832 CCTTAAACCATAAACCATAA
1 CCTTAAACCATAAACCATAA
* *
6477852 TCTCTAAACCCATAATCCATAAA
1 CCT-TAAA-CCATAAACCAT-AA
*
6477875 CCTTAAA--ATAGTAACTCCTAAA
1 CCTTAAACCATA--AAC-CAT-AA
*
6477897 GCTTAAACGC-TAAACCATACA
1 CCTTAAAC-CATAAACCATA-A
*
6477918 CCTTATACCATAAACC
1 CCTTAAACCATAAACC
6477934 CTAAACTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 21
0.67 0.10 0.23
Matches are distributed among these distances:
19 3 0.05
20 4 0.06
21 21 0.34
22 28 0.45
23 4 0.06
24 2 0.03
ACGTcount: A:0.44, C:0.29, G:0.03, T:0.24
Consensus pattern (20 bp):
CCTTAAACCATAAACCATAA
Found at i:6477944 original size:14 final size:14
Alignment explanation
Indices: 6477829--6477944 Score: 58
Period size: 14 Copynumber: 8.1 Consensus size: 14
6477819 ATTGACCCCT
6477829 AACCCTTAAACCATA
1 AACCC-TAAACCATA
* *
6477844 AACCATAATCTC-TA
1 AACCCTAAAC-CATA
*
6477858 AACCCATAATCCATA
1 AACCC-TAAACCATA
*
6477873 AACCTTAAA--ATA
1 AACCCTAAACCATA
* *
6477885 GTAACTCCTAAAGCTTA
1 --AAC-CCTAAACCATA
*
6477902 AACGCTAAACCATA
1 AACCCTAAACCATA
* * *
6477916 CACCTTATACCATA
1 AACCCTAAACCATA
*
6477930 AACCCTAAACTATA
1 AACCCTAAACCATA
6477944 A
1 A
6477945 TGATAATTAA
Statistics
Matches: 75, Mismatches: 18, Indels: 17
0.68 0.16 0.15
Matches are distributed among these distances:
12 3 0.04
14 46 0.61
15 24 0.32
17 2 0.03
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.23
Consensus pattern (14 bp):
AACCCTAAACCATA
Found at i:6478050 original size:7 final size:7
Alignment explanation
Indices: 6478038--6478185 Score: 77
Period size: 7 Copynumber: 20.7 Consensus size: 7
6478028 ACTAATTAAT
6478038 CTAAACC
1 CTAAACC
6478045 CTAAACTC
1 CTAAAC-C
*
6478053 CTAATCC
1 CTAAACC
6478060 CTAAACC
1 CTAAACC
6478067 CTAAACC
1 CTAAACC
* *
6478074 ATAAATC
1 CTAAACC
*
6478081 CTAAAAC
1 CTAAACC
*
6478088 ATAAACC
1 CTAAACC
* *
6478095 ATGAACCC
1 CT-AAACC
6478103 CT-AACC
1 CTAAACC
* *
6478109 ATTAACCC
1 -CTAAACC
6478117 CT-AACAC
1 CTAAAC-C
6478124 CTAAACC
1 CTAAACC
*
6478131 TTAAACC
1 CTAAACC
*
6478138 C-CAACC
1 CTAAACC
6478144 CTTAAACC
1 C-TAAACC
* *
6478152 ATAATCC
1 CTAAACC
6478159 CTAAACC
1 CTAAACC
*
6478166 CATAATCC
1 C-TAAACC
*
6478174 ATAAACC
1 CTAAACC
*
6478181 TTAAA
1 CTAAA
6478186 ATAGTAACTC
Statistics
Matches: 105, Mismatches: 27, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
6 10 0.10
7 69 0.66
8 26 0.25
ACGTcount: A:0.43, C:0.36, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:6478080 original size:22 final size:21
Alignment explanation
Indices: 6478038--6478106 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
6478028 ACTAATTAAT
*
6478038 CTAAACCCTAAACTCCTAATCC
1 CTAAACCCTAAAC-CATAATCC
6478060 CTAAACCCTAAACCATAAAT-C
1 CTAAACCCTAAACCAT-AATCC
* * *
6478081 CTAAAACATAAACCATGAACCC
1 CTAAACCCTAAACCAT-AATCC
6478103 CTAA
1 CTAA
6478107 CCATTAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 19 0.47
22 21 0.52
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (21 bp):
CTAAACCCTAAACCATAATCC
Found at i:6478168 original size:15 final size:15
Alignment explanation
Indices: 6478146--6478180 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6478136 CCCCAACCCT
*
6478146 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
6478160 TAAACCCATAATCCA
1 TAAACCCATAATCCA
6478175 TAAACC
1 TAAACC
6478181 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:6478185 original size:22 final size:22
Alignment explanation
Indices: 6478082--6478185 Score: 63
Period size: 22 Copynumber: 4.8 Consensus size: 22
6478072 CCATAAATCC
* * * *
6478082 TAAAACATAAACCATGAACCCC
1 TAAACCATAAACCCTAAACCCA
*
6478104 T-AACCATTAACCCCT-AACACC-
1 TAAACCA-TAAACCCTAAAC-CCA
* * *
6478125 TAAACCTTAAACCC-CAACCCT
1 TAAACCATAAACCCTAAACCCA
*
6478146 TAAACCATAATCCCTAAACCCA
1 TAAACCATAAACCCTAAACCCA
* *
6478168 TAATCCATAAACCTTAAA
1 TAAACCATAAACCCTAAA
6478186 ATAGTAACTC
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
20 2 0.03
21 29 0.45
22 33 0.52
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.19
Consensus pattern (22 bp):
TAAACCATAAACCCTAAACCCA
Found at i:6478454 original size:40 final size:40
Alignment explanation
Indices: 6478395--6478499 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
6478385 CATTTTTTGT
*
6478395 GGCGTTTTTCAAAAA-CGCCGCTAAAGATCG-AGCAT-TAGC
1 GGCGTTTTTAAAAAAGCGCCGCTAAAGAT-GTA-CATATAGC
* * *
6478434 GGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTACTTATAGC
1 GGCGTTTTTAAAAAAGCGCCGCTAAAGATGTACATATAGC
*
6478474 GGCGTTTCTTAAAAAAGCACCGCTAA
1 GGCGTTT-TTAAAAAAGCGCCGCTAA
6478500 TACCTGATCT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
39 17 0.30
40 24 0.42
41 16 0.28
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (40 bp):
GGCGTTTTTAAAAAAGCGCCGCTAAAGATGTACATATAGC
Found at i:6478824 original size:39 final size:40
Alignment explanation
Indices: 6478759--6478850 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 40
6478749 AGTGTACATA
*
6478759 TAGCGGCGTTTTTAAAAAAGCGCCACTAATACTTGATCTT
1 TAGCGGCGTTTTTAAAAAAGCGCCACTAATACTCGATCTT
* * * * *
6478799 TAGTGTCGTTTTT-AAAAAGTGCCACTAATGCTCGTTCTT
1 TAGCGGCGTTTTTAAAAAAGCGCCACTAATACTCGATCTT
6478838 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
6478851 CATTCAAACG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.75
40 11 0.25
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (40 bp):
TAGCGGCGTTTTTAAAAAAGCGCCACTAATACTCGATCTT
Found at i:6479797 original size:49 final size:49
Alignment explanation
Indices: 6479742--6479836 Score: 156
Period size: 49 Copynumber: 1.9 Consensus size: 49
6479732 CATATTGCTG
* *
6479742 TATTTCATCCAGG-TAACTTACATATGTTGTTTGTTGCCACCTTTTAGCA
1 TATTTCATCC-GGATAACGTACATATGCTGTTTGTTGCCACCTTTTAGCA
6479791 TATTTCATCCGGATAACGTACATATGCTGTTTGTTGCCACCTTTTA
1 TATTTCATCCGGATAACGTACATATGCTGTTTGTTGCCACCTTTTA
6479837 ACACTCCTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
48 2 0.05
49 41 0.95
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (49 bp):
TATTTCATCCGGATAACGTACATATGCTGTTTGTTGCCACCTTTTAGCA
Found at i:6484329 original size:49 final size:49
Alignment explanation
Indices: 6484274--6484368 Score: 156
Period size: 49 Copynumber: 1.9 Consensus size: 49
6484264 CATGTTGCTG
* *
6484274 TATTTCATCCAGG-TAACTTACATATGTTGTTTGTTGCCACCTTTTAGAA
1 TATTTCATCC-GGATAACGTACATATGCTGTTTGTTGCCACCTTTTAGAA
6484323 TATTTCATCCGGATAACGTACATATGCTGTTTGTTGCCACCTTTTA
1 TATTTCATCCGGATAACGTACATATGCTGTTTGTTGCCACCTTTTA
6484369 ACAGTACTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
48 2 0.05
49 41 0.95
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (49 bp):
TATTTCATCCGGATAACGTACATATGCTGTTTGTTGCCACCTTTTAGAA
Found at i:6495977 original size:20 final size:20
Alignment explanation
Indices: 6495938--6495978 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6495928 AGGGGCACAC
* *
6495938 GCCCGTGTGACCTGGGACAT
1 GCCCGTGTGACCTAGAACAT
*
6495958 GCCCGTGTGGCCTAGAACAT
1 GCCCGTGTGACCTAGAACAT
6495978 G
1 G
6495979 GCCATGGGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGACCTAGAACAT
Found at i:6497843 original size:18 final size:18
Alignment explanation
Indices: 6497820--6497855 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6497810 TCATTCATTC
*
6497820 TTTTATTTCTTTCTTTTA
1 TTTTATTTCTTTCATTTA
*
6497838 TTTTATTTGTTTCATTTA
1 TTTTATTTCTTTCATTTA
6497856 ATTACGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTATTTCTTTCATTTA
Found at i:6499666 original size:15 final size:14
Alignment explanation
Indices: 6499644--6499678 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
6499634 TAAAAGTAAC
6499644 ATAAAAAAATA-AA
1 ATAAAAAAATAGAA
6499657 AGTAAAAAAATAGAA
1 A-TAAAAAAATAGAA
6499672 ATAAAAA
1 ATAAAAA
6499679 TAACATAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 16 0.80
15 3 0.15
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (14 bp):
ATAAAAAAATAGAA
Found at i:6503969 original size:22 final size:24
Alignment explanation
Indices: 6503944--6503987 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6503934 TTTCTTGCAA
6503944 TCTAATTT-T-ATTTTAATTTTGT
1 TCTAATTTATAATTTTAATTTTGT
*
6503966 TCTAATTTATAATTTTATTTTT
1 TCTAATTTATAATTTTAATTTT
6503988 CCTTCCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 1 0.05
24 10 0.53
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (24 bp):
TCTAATTTATAATTTTAATTTTGT
Found at i:6511435 original size:76 final size:77
Alignment explanation
Indices: 6511338--6511485 Score: 228
Period size: 77 Copynumber: 1.9 Consensus size: 77
6511328 CTCTCTCAAT
* * * *
6511338 GTGACCCAATTTCTTGCAATTCGAGAATGGTGGATA-TTTTTTCTTTCCACTGTCTCTTTTTGT-
1 GTGACCAAATTCCTTGCAATTCGAGAACGATGGATATTTTTTTCTTTCCACTGTCTCTTTTT-TA
6511401 CTTTTCTTGTAGG
65 CTTTTCTTGTAGG
*
6511414 GTGACCAAATTCCTTGCAATTCGAGCACGATGGATATTTTTTTCTTTCCACTGTCTCTTTTTTAC
1 GTGACCAAATTCCTTGCAATTCGAGAACGATGGATATTTTTTTCTTTCCACTGTCTCTTTTTTAC
6511479 TTTTCTT
66 TTTTCTT
6511486 TCTTATCTGA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
76 32 0.49
77 33 0.51
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (77 bp):
GTGACCAAATTCCTTGCAATTCGAGAACGATGGATATTTTTTTCTTTCCACTGTCTCTTTTTTAC
TTTTCTTGTAGG
Found at i:6524668 original size:35 final size:35
Alignment explanation
Indices: 6524629--6524758 Score: 170
Period size: 35 Copynumber: 3.7 Consensus size: 35
6524619 TCCATGGAAA
6524629 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
* *
6524664 AGTTGTGAAACGTAGGTATGGTATTATCCATATTG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
** ** ** *
6524699 AGTTAAGAAACGTAGGTATGACATTTCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
*
6524734 AGTTGTGAAATGTAGGTATGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
6524759 TAAATGATGA
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 80 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
Found at i:6529627 original size:12 final size:12
Alignment explanation
Indices: 6529610--6529634 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6529600 TGTGAAAAAT
6529610 AAAATAAAATAA
1 AAAATAAAATAA
6529622 AAAATAAAATAA
1 AAAATAAAATAA
6529634 A
1 A
6529635 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:6532469 original size:30 final size:30
Alignment explanation
Indices: 6532432--6532500 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
6532422 CTAGCCTTTG
*
6532432 CCACCACCAACTCCACTAGCCACACTTGTT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
6532462 TCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6532492 CCACCACCA
1 CCACCACCA
6532501 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.28, C:0.49, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:6533078 original size:25 final size:24
Alignment explanation
Indices: 6532966--6533094 Score: 81
Period size: 22 Copynumber: 5.6 Consensus size: 24
6532956 CTTTTTTTGT
* * *
6532966 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATATATATTAATACTA
* * * *
6532989 TATTATATATAT-TCTT-TTAATA
1 TATTATGTATATATATTAATACTA
* * *
6533011 TATTAAGTATAT-T-CTAATTCTA
1 TATTATGTATATATATTAATACTA
*
6533033 TATTACGTATATATATT-ATACTA
1 TATTATGTATATATATTAATACTA
* *
6533056 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATAT-ATTAATACTA
*
6533081 TATTATTTATATAT
1 TATTATGTATATAT
6533095 TTTTTTCTAC
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.01
22 29 0.35
23 28 0.33
24 8 0.10
25 18 0.21
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (24 bp):
TATTATGTATATATATTAATACTA
Found at i:6533103 original size:77 final size:77
Alignment explanation
Indices: 6533031--6533177 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 77
6533021 ATTCTAATTC
* * * *
6533031 TATATTACGTATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATT
1 TATATTACGTATATATATTA-ACTATATTATGTATATATCTTTAACACTATATTATGTACATATT
6533096 TTTTTCTACATGT
65 TTTTTCTACATGT
* * * * * * *
6533109 TATCTTATGTATATATTTTAATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTT
1 TATATTACGTATATATATTAACTATATTATGTATATATCTTTAACACTATATTATGTACATATTT
6533174 TTTT
66 TTTT
6533178 TATATCTATT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
77 41 0.71
78 17 0.29
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.58
Consensus pattern (77 bp):
TATATTACGTATATATATTAACTATATTATGTATATATCTTTAACACTATATTATGTACATATTT
TTTTCTACATGT
Found at i:6533164 original size:25 final size:25
Alignment explanation
Indices: 6533030--6533176 Score: 97
Period size: 25 Copynumber: 5.9 Consensus size: 25
6533020 TATTCTAATT
* * *
6533030 CTATATTACGTATATA--TATTATA
1 CTATATTATGTATATATTTTTTACA
* * * *
6533053 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATTTTTTACA
*
6533078 CTATATTATTTATATATTTTTTTCTACA
1 CTATATTATGTATATA--TTTTT-TACA
* *
6533106 TGTTATCTTATGTATATA--TTTTA-A
1 --CTATATTATGTATATATTTTTTACA
* *
6533130 TTATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATTTTTTACA
*
6533155 CTATATTATGTACATATTTTTT
1 CTATATTATGTATATATTTTTT
6533177 TTATATCTAT
Statistics
Matches: 97, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
22 14 0.14
23 14 0.14
24 6 0.06
25 41 0.42
26 3 0.03
27 4 0.04
28 2 0.02
30 13 0.13
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (25 bp):
CTATATTATGTATATATTTTTTACA
Found at i:6533265 original size:25 final size:24
Alignment explanation
Indices: 6533237--6533292 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
6533227 GTTATATTTT
*
6533237 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
6533262 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
6533285 CACTATTA
1 CACTATTA
6533293 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:6551849 original size:13 final size:13
Alignment explanation
Indices: 6551805--6551849 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
6551795 ACGCGAGGTA
6551805 TTTTTAATTTCTG
1 TTTTTAATTTCTG
6551818 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
6551832 CTTTTAATTTCTG
1 TTTTTAATTTCTG
6551845 TTTTT
1 TTTTT
6551850 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:6551913 original size:99 final size:101
Alignment explanation
Indices: 6551733--6552096 Score: 440
Period size: 99 Copynumber: 3.8 Consensus size: 101
6551723 AATTTTCGTT
* *
6551733 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTT-AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
6551798 C-GAGGTATTTTTAATTTCTGTTTTTCAATTTCTG-C
65 CTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCC
*
6551833 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCG-GAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
6551897 TGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCC
66 TGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCC
** * *
6551933 TTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
6551996 TGAGGTATTTTCAA-------TTTTC--GTT-T---
66 TGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCC
* ** * *
6552019 TTTTAATTTATGCTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACG
1 TTTTAATTTCTGCTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
6552084 CTGAGGTAATTTT
65 CTGAGGT-ATTTT
6552097 AGTTTTTGTT
Statistics
Matches: 239, Mismatches: 18, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
86 11 0.05
87 1 0.00
89 51 0.21
90 7 0.03
92 5 0.02
98 43 0.18
99 102 0.43
100 19 0.08
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (101 bp):
TTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCC
Found at i:6552139 original size:73 final size:73
Alignment explanation
Indices: 6552038--6552595 Score: 696
Period size: 73 Copynumber: 7.6 Consensus size: 73
6552028 ATGCTTCTAA
* * * *
6552038 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AGTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
6552102 TTGTTTGTC
65 TTGTTTGTC
* * * * *
6552111 AAAACTCAAATCATATTGCAAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
*
6552176 TGTTTTTC
66 TGTTTGTC
* * * *
6552184 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
6552249 TTTGTTTGTC
64 TTTGTTTGTC
6552259 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT-
* **
6552324 TATCTTT-AA
65 T-TGTTTGTC
* *
6552333 AAAAATCAACTCATATTGCGAGAGGT-AGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
*
6552397 TGTTTTTC
66 TGTTTGTC
* * * * *
6552405 AAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCACAAG--ACGCTGAGGTAATTTCAATTT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
*
6552468 TTGCTTGTC
65 TTGTTTGTC
* * *
6552477 AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
*
6552542 TATCTT-TC
66 TGT-TTGTC
* *
6552550 AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
6552596 GCTGAGGTGT
Statistics
Matches: 418, Mismatches: 53, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
71 40 0.10
72 30 0.07
73 200 0.48
74 42 0.10
75 67 0.16
76 39 0.09
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
TGTTTGTC
Found at i:6552304 original size:148 final size:147
Alignment explanation
Indices: 6552036--6552625 Score: 735
Period size: 148 Copynumber: 4.0 Consensus size: 147
6552026 TTATGCTTCT
* * * *
6552036 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAGTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
* * * * * * *
6552101 TTTGTTTGTC-AAAACTCAAATCATATTGCAAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTA
66 TCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC--AAGACGCTGAGGTA
6552165 TTTTCAATTTCTGTTTTTC
129 TTTTCAATTTCTGTTTTTC
* *
6552184 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
* * *
6552249 TTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTA
* *
6552313 TTTTCAATTTCTATCTTT-
129 TTTTCAATTTCTGTTTTTC
* * *
6552331 AAAAAAATCAACTCATATTGCGAGAGGT-AGTTGAACCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
* * * *
6552395 TCTGTTTTTCAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCACAAGACGCTGAGGTAAT
66 TCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATT
* * *
6552460 TTCAATTTTTGCTTGTC
131 TTCAATTTCTGTTTTTC
* * * *
6552477 --AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
* *
6552540 TCTATCTT-TCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGT
66 TCTGT-TTGTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGT
* * *
6552604 GTTTTCCATTTCTGTTCTTC
128 ATTTTCAATTTCTGTTTTTC
6552624 AA
1 AA
6552626 TTTCTGTGTT
Statistics
Matches: 391, Mismatches: 41, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
144 25 0.06
145 62 0.16
146 44 0.11
147 127 0.32
148 133 0.34
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (147 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
TCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATT
TTCAATTTCTGTTTTTC
Found at i:6552733 original size:15 final size:14
Alignment explanation
Indices: 6552697--6552729 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6552687 CGCTGAGGTA
6552697 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
6552711 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
6552725 TTTTC
1 TTTTC
6552730 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:6552824 original size:89 final size:86
Alignment explanation
Indices: 6552531--6552860 Score: 358
Period size: 89 Copynumber: 3.7 Consensus size: 86
6552521 CGTTGAGGTA
* * * *
6552531 TTTTCAATTTCTATCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
6552596 -GCTGAGGTGTTTTCCATTTCTGT
63 AGCTGAGGTATTTTCAATTTCTGT
* * * *
6552619 TCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGGCT
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
*
6552683 CACACGCTGAGGTATTTTCAAATTCTGT
61 -ACA-GCTGAGGTATTTTCAATTTCTGT
* * * *
6552711 TTTTCAAATTTTGTTTTTCCAAAAAATCAAATCATATTGCAAGAGGTGAGTTCAGCCTCAGGACA
1 TTTTC-AATTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC-
* *
6552776 AGCTGAGATATTTTCAATTTCTTT
63 AGCTGAGGTATTTTCAATTTCTGT
6552800 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
6552861 ATCACACGCC
Statistics
Matches: 206, Mismatches: 25, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
87 1 0.00
88 62 0.30
89 69 0.33
90 3 0.01
91 33 0.16
92 32 0.16
93 6 0.03
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (86 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAGC
TGAGGTATTTTCAATTTCTGT
Found at i:6552841 original size:180 final size:179
Alignment explanation
Indices: 6552552--6552883 Score: 452
Period size: 180 Copynumber: 1.8 Consensus size: 179
6552542 TATCTTTCAA
** * * * * *
6552552 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCT
1 AAAAAATCAAATCATATTGCAAGAGGTGAGTTCAACCTCAAGACGCTGAGATATTTTCAATTTCT
* * * ** *
6552617 GTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGGC
66 GTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
**
6552682 TCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
131 TCACACGCCAAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
* *
6552731 AAAAAATCAAATCATATTGCAAGAGGTGAGTTCAGCCTCAGGACAAGCTGAGATATTTTCAATTT
1 AAAAAATCAAATCATATTGCAAGAGGTGAGTTCAACCTCAAGAC--GCTGAGATATTTTCAATTT
* *
6552796 CTTTTTTTCAATTTATGT-TTGTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 CTGTTCTTCAATTTATGTGTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
6552859 AGATCACACGCCAAGGTATTTTCAA
128 AGATCACACGCCAAGGTATTTTCAA
6552884 TTGATTTTTA
Statistics
Matches: 131, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
179 38 0.29
180 60 0.46
181 33 0.25
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (179 bp):
AAAAAATCAAATCATATTGCAAGAGGTGAGTTCAACCTCAAGACGCTGAGATATTTTCAATTTCT
GTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
TCACACGCCAAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
Found at i:6552892 original size:89 final size:86
Alignment explanation
Indices: 6552531--6553142 Score: 325
Period size: 88 Copynumber: 6.8 Consensus size: 86
6552521 CGTTGAGGTA
* * *
6552531 TTTTCAATTTCTATCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTC--A--
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* * *
6552592 AGACGCTGAGGTGTTTTCCATTTCTGT
63 ACACGCTGAGGTATTTT-CA-AT-TGT
* * * ** *
6552619 TCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
6552684 ACACGCTGAGGTATTTTCAAATTCTGT
63 ACACGCTGAGGTATTTTC-AA-T-TGT
* * * *
6552711 TTTTCAAATTTTGTTTTTCCAAAAAATCAAATCATATTGCAAGAGGTGAGTTCAGCCTCAGGA-C
1 TTTTC-AATTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATC
* *
6552775 A-A-GCTGAGATATTTTCAATTTCTTT
63 ACACGCTGAGGTATTTTCAA--T-TGT
6552800 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
**
6552865 CACGCCAAGGTATTTTCAATTGAT
64 CACGCTGAGGTATTTTCAATTG-T
* * *
6552889 TTTT-ATTTTTATTTTTTTCAATTTATGCTTTGCAAAAATCAACTCATATTACGAGAGGTGAGTT
1 TTTTCA--ATT-TTGTTTTC-A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTT
* * ** *
6552953 GAGCCTCGGGTCACATACCGAGGTATTTTCAAAATCTGT
51 GAGCCTCAGATCACACGCTGAGGTATTTTC--AAT-TGT
* * ** *
6552992 TTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCAC
1 TTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
** * *
6553054 GTGCTGAGCTATTTTCAATTTCT
65 ACGCTGAGGTATTTTCAA-TTGT
* * * * ** *
6553077 ATTTTTAATGTTTAGTTTT--AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGAT
1 -TTTTCAAT-TTT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAT
6553139 CACA
62 CACA
6553143 TGCCGAGTAA
Statistics
Matches: 421, Mismatches: 61, Indels: 84
0.74 0.11 0.15
Matches are distributed among these distances:
85 7 0.02
86 7 0.02
87 60 0.14
88 102 0.24
89 74 0.18
90 9 0.02
91 50 0.12
92 32 0.08
93 7 0.02
101 55 0.13
102 6 0.01
103 9 0.02
104 2 0.00
105 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (86 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
CGCTGAGGTATTTTCAATTGT
Found at i:6552967 original size:101 final size:102
Alignment explanation
Indices: 6552797--6552984 Score: 290
Period size: 101 Copynumber: 1.8 Consensus size: 102
6552787 TTTCAATTTC
*
6552797 TTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
1 TTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
*
6552862 TCACACGCCAAGGTATTTTCAATTGATTTTTATTTTTA
65 TCACACACCAAGGTATTTTCAATTGATTTTTATTTTTA
* *
6552900 TTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG
1 TTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
* *
6552963 TCACATACCGAGGTATTTTCAA
65 TCACACACCAAGGTATTTTCAA
6552985 AATCTGTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
101 57 0.73
103 17 0.22
104 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (102 bp):
TTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGAT
CACACACCAAGGTATTTTCAATTGATTTTTATTTTTA
Found at i:6553037 original size:87 final size:87
Alignment explanation
Indices: 6552922--6553149 Score: 246
Period size: 87 Copynumber: 2.6 Consensus size: 87
6552912 TATGCTTTGC
* * * * *
6552922 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
*
6552987 TCTGTTTTACAAAT-TTT-GTTTT
66 TCTATTTT--AAATGTTTAGTTTT
* * * * **
6553009 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
*
6553074 TCTATTTTTAATGTTTAGTTTT
66 TCTATTTTAAATGTTTAGTTTT
* * * *
6553096 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGATCACATGCCGAG
6553150 TAAAGAATAA
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 72 0.62
88 39 0.33
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
TCTATTTTAAATGTTTAGTTTT
Found at i:6553223 original size:21 final size:21
Alignment explanation
Indices: 6553197--6553238 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6553187 TTTATATCCC
6553197 TGAAGTTACAGTGAAGCTAAT
1 TGAAGTTACAGTGAAGCTAAT
* *
6553218 TGAAGTTGCAGTGGAGCTAAT
1 TGAAGTTACAGTGAAGCTAAT
6553239 CGATGATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
TGAAGTTACAGTGAAGCTAAT
Found at i:6553800 original size:30 final size:30
Alignment explanation
Indices: 6553764--6553862 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
6553754 CTAGCCTTTG
6553764 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
6553794 CCACCACCAACTCCACTAACGACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
6553824 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6553854 CCACCACCA
1 CCACCACCA
6553863 CTTGTACCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.27, C:0.51, G:0.06, T:0.16
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:6554386 original size:24 final size:24
Alignment explanation
Indices: 6554338--6554470 Score: 87
Period size: 24 Copynumber: 5.6 Consensus size: 24
6554328 TTTTTTTTGT
*
6554338 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATATTTCTTAATAATA
*
6554361 TATTATGTATATATTCTT-TTAATA
1 TATTATGTATAT-TTCTTAATAATA
* * **
6554385 TATTAGGTATA-TTCTAAATTCTA
1 TATTATGTATATTTCTTAATAATA
* * *
6554408 TATTACGTATATATATATT-ATACTA
1 TATTATGTATAT-T-TCTTAATAATA
* *
6554433 T-TTATGTATATATCTTTAATACTA
1 TATTATGTATATTTC-TTAATAATA
*
6554457 TATTATTTATATTT
1 TATTATGTATATTT
6554471 TTTTTTTCTA
Statistics
Matches: 85, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
22 5 0.06
23 21 0.25
24 35 0.41
25 22 0.26
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (24 bp):
TATTATGTATATTTCTTAATAATA
Found at i:6554442 original size:47 final size:49
Alignment explanation
Indices: 6554344--6554461 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 49
6554334 TTGTTATTAT
* * * * *
6554344 TATATTTCTT-AATATTATATTATGTATATATTCTTTTAATATATTAGG
1 TATATATCTTAAATACTATATTACGTATATATTATTATAATATATTAGG
* * *
6554392 TATAT-TC-TAAATTCTATATTACGTATATATATATTATACTAT-TTATG
1 TATATATCTTAAATACTATATTACGTATATAT-TATTATAATATATTAGG
*
6554439 TATATATCTTTAATACTATATTA
1 TATATATCTTAAATACTATATTA
6554462 TTTATATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
46 1 0.02
47 29 0.51
48 15 0.26
49 12 0.21
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (49 bp):
TATATATCTTAAATACTATATTACGTATATATTATTATAATATATTAGG
Found at i:6554515 original size:22 final size:23
Alignment explanation
Indices: 6554485--6554550 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
6554475 TTTCTACATG
*
6554485 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
6554507 TTATATTATGTATGTATTTTTACA
1 TTATATTATGTATATA-TTTTACA
* * *
6554531 CTATATTACGTACATATTTT
1 TTATATTATGTATATATTTT
6554551 TTTATATCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 14 0.39
23 9 0.25
24 13 0.36
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:6554589 original size:77 final size:76
Alignment explanation
Indices: 6554419--6554589 Score: 170
Period size: 79 Copynumber: 2.2 Consensus size: 76
6554409 ATTACGTATA
* ** *
6554419 TATATATTATACTAT-TTATGTATATATCTTTAATACTATATTATTTATATTTTTTTTTTCTACA
1 TATATATTATACTATATTATGTATATATCTTTAACACTATATTATACATATTTTTTTTATCTA-A
*
6554483 TGTTATCTTATG
65 TGTTATCATATG
* * * *
6554495 TATATATTTTAATTATATTATGTATGTAT-TTTTACACTATATTACGTACATATTTTTTTATATC
1 TATATATTAT-ACTATATTATGTATATATCTTTAACACTATATTA--TACATATTTTTTT-TATC
*
6554559 T-ATTTTATACATATG
62 TAATGTTAT-CATATG
6554574 TATATATTATA-TATAT
1 TATATATTATACTATAT
6554590 CTTAACATTA
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
76 9 0.12
77 22 0.28
78 18 0.23
79 25 0.32
80 4 0.05
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (76 bp):
TATATATTATACTATATTATGTATATATCTTTAACACTATATTATACATATTTTTTTTATCTAAT
GTTATCATATG
Found at i:6554641 original size:25 final size:24
Alignment explanation
Indices: 6554613--6554668 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
6554603 GTTATATTTT
*
6554613 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
6554638 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
6554661 CACTATTA
1 CACTATTA
6554669 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:6557738 original size:46 final size:46
Alignment explanation
Indices: 6557680--6558000 Score: 430
Period size: 46 Copynumber: 7.0 Consensus size: 46
6557670 AGTGTGCTCT
6557680 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
6557726 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
6557772 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
6557818 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
6557864 GTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
6557910 GTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
6557957 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
6558001 TCATGTCGAA
Statistics
Matches: 250, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 209 0.84
47 40 0.16
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6560966 original size:18 final size:18
Alignment explanation
Indices: 6560925--6560969 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
6560915 GAATTGTTTG
* * *
6560925 AATTTTAAAATTATATTT
1 AATTTTATAATTAAAATT
*
6560943 ATTTTTATAATTAAAATT
1 AATTTTATAATTAAAATT
6560961 AATTTTATA
1 AATTTTATA
6560970 TTTTTTTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTTATAATTAAAATT
Found at i:6567440 original size:23 final size:23
Alignment explanation
Indices: 6567407--6567450 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6567397 TTTTACAATT
* **
6567407 TTTTTATATTTTGAATTTTTTTA
1 TTTTTAGATTTTATATTTTTTTA
6567430 TTTTTAGATTTTATATTTTTT
1 TTTTTAGATTTTATATTTTTT
6567451 CAAATGATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTTTAGATTTTATATTTTTTTA
Found at i:6567441 original size:16 final size:17
Alignment explanation
Indices: 6567403--6567434 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6567393 CTTTTTTTAC
6567403 AATTTTTTTATATTTTG
1 AATTTTTTTATATTTTG
6567420 AATTTTTTTAT-TTTT
1 AATTTTTTTATATTTT
6567435 AGATTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
AATTTTTTTATATTTTG
Found at i:6569620 original size:17 final size:16
Alignment explanation
Indices: 6569567--6569626 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 16
6569557 ATTCATTTAA
6569567 AAAAAATGAA-TTTAAGT
1 AAAAAAT-AAGTTT-AGT
6569584 AAAAAATATAGGTTTA--
1 AAAAAATA-A-GTTTAGT
6569600 AAAAAATAAGTTTAGGT
1 AAAAAATAAGTTTA-GT
6569617 AAAAAATAAG
1 AAAAAATAAG
6569627 ACCTATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 5 0.14
15 1 0.03
16 9 0.24
17 18 0.49
18 1 0.03
19 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (16 bp):
AAAAAATAAGTTTAGT
Found at i:6572204 original size:22 final size:21
Alignment explanation
Indices: 6572146--6572206 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
6572136 AAAAAAAATT
*
6572146 AATAAATTATAAT-TAATTTAA
1 AATAAATTA-AATATAATTAAA
*
6572167 AAT-AATGGAAAATATAATTAAA
1 AATAAAT--TAAATATAATTAAA
6572189 AATAAATTAAACTATAAT
1 AATAAATTAAA-TATAAT
6572207 CAGTTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 3 0.09
21 9 0.28
22 17 0.53
23 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (21 bp):
AATAAATTAAATATAATTAAA
Found at i:6572463 original size:41 final size:40
Alignment explanation
Indices: 6572413--6572492 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 40
6572403 AAAATATGAC
* *
6572413 ATAAGTCCCTGTATTAATTATAAATATGGAATTTAGTTTT
1 ATAAGTCCCTATATTAATTATAAATATGGAATATAGTTTT
*
6572453 ATAATGTCCCTATATTATTTATAAATATGGAATATAGTTT
1 ATAA-GTCCCTATATTAATTATAAATATGGAATATAGTTT
6572493 ATGTTCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 4 0.11
41 32 0.89
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (40 bp):
ATAAGTCCCTATATTAATTATAAATATGGAATATAGTTTT
Found at i:6576034 original size:36 final size:36
Alignment explanation
Indices: 6575992--6576060 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
6575982 TTTGTTATTT
*
6575992 TATAATTTGTTCATTTTAAACATTGCTGTGATTGAA
1 TATAATTTATTCATTTTAAACATTGCTGTGATTGAA
* *
6576028 TATAATTTATTCTTTTTAAATATTGCTGTGATT
1 TATAATTTATTCATTTTAAACATTGCTGTGATT
6576061 CAACTAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (36 bp):
TATAATTTATTCATTTTAAACATTGCTGTGATTGAA
Found at i:6576691 original size:33 final size:35
Alignment explanation
Indices: 6576629--6576707 Score: 128
Period size: 33 Copynumber: 2.3 Consensus size: 35
6576619 ACACAAATAA
6576629 ATAAAATC-AAACATAAGCATTTATGTTATAAATT
1 ATAAAATCAAAACATAAGCATTTATGTTATAAATT
*
6576663 ATAAAATCAAAACA-AA-CATTTATTTTATAAATT
1 ATAAAATCAAAACATAAGCATTTATGTTATAAATT
6576696 ATAAAATCAAAA
1 ATAAAATCAAAA
6576708 TTAAATAGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
33 28 0.65
34 10 0.23
35 5 0.12
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.33
Consensus pattern (35 bp):
ATAAAATCAAAACATAAGCATTTATGTTATAAATT
Found at i:6576877 original size:43 final size:43
Alignment explanation
Indices: 6576809--6576903 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 43
6576799 AATTACATTT
** *
6576809 TTAAATAAATCATATCGTACACATATTTTACATAATATTA-TCC
1 TTAAATATTTCATATCATACACATATTTTACATAATATTACT-C
*
6576852 TTAAATATTTCATATCATACCCATATTTTACATAATATTACTC
1 TTAAATATTTCATATCATACACATATTTTACATAATATTACTC
6576895 TT-AATATTT
1 TTAAATATTT
6576904 TTCATTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
42 7 0.15
43 39 0.83
44 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.44
Consensus pattern (43 bp):
TTAAATATTTCATATCATACACATATTTTACATAATATTACTC
Found at i:6576968 original size:37 final size:38
Alignment explanation
Indices: 6576927--6577000 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 38
6576917 TACAATGACG
*
6576927 TATTTTACACGATATTACTCTTAAAT-ATTTTTATTTT
1 TATTTTACACAATATTACTCTTAAATCATTTTTATTTT
* * * *
6576964 TATTTTATACAATATTAGTTTTAAATCTTTTTTATTT
1 TATTTTACACAATATTACTCTTAAATCATTTTTATTT
6577001 AAATTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 22 0.71
38 9 0.29
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (38 bp):
TATTTTACACAATATTACTCTTAAATCATTTTTATTTT
Found at i:6577231 original size:23 final size:23
Alignment explanation
Indices: 6577147--6577231 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 23
6577137 ATATCTCATT
*
6577147 CTCATTCTCATCTAACTTTTAAC
1 CTCATTCTCATCTAATTTTTAAC
6577170 CTCATTCTCATCTAATTTCATTGAA-
1 CTCATTCTCATCTAATTT--TT-AAC
6577195 CT--TTCT--TCT--TTTTTAAC
1 CTCATTCTCATCTAATTTTTAAC
6577212 CTCATTCTCATCTAATTTTT
1 CTCATTCTCATCTAATTTTT
6577232 TTCATATCTC
Statistics
Matches: 51, Mismatches: 1, Indels: 20
0.71 0.01 0.28
Matches are distributed among these distances:
16 2 0.04
17 4 0.08
19 7 0.14
21 6 0.12
23 26 0.51
25 4 0.08
26 2 0.04
ACGTcount: A:0.22, C:0.26, G:0.01, T:0.51
Consensus pattern (23 bp):
CTCATTCTCATCTAATTTTTAAC
Found at i:6577558 original size:94 final size:93
Alignment explanation
Indices: 6577443--6577632 Score: 292
Period size: 94 Copynumber: 2.0 Consensus size: 93
6577433 AATAAGGACT
* *
6577443 AATTGAAAGCCAAAAGAAAGTAATATGCTCTTATCT-GACACTAAAATGATTTCGAAGTTACATA
1 AATTGAAAGCCAAAAGAAAGTAATATGCTCTTATCTAG-CACTAAAATGATTTAGAACTTACATA
*
6577507 AGTTAATGATATTAGAGGCTAAAGAACTAA
65 AGTTAATGATATTAGAGGCTAAA-AAATAA
* *
6577537 AATTGAAAGTCAAAAGAAAGTAATATGCTCTTATCTAGCACTAGAATGATTTAGAACTTACATAA
1 AATTGAAAGCCAAAAGAAAGTAATATGCTCTTATCTAGCACTAAAATGATTTAGAACTTACATAA
* *
6577602 TTTGATGATATTAGAGGCTAAAAAATAA
66 GTTAATGATATTAGAGGCTAAAAAATAA
6577630 AAT
1 AAT
6577633 AAGTATCGGA
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
93 8 0.09
94 79 0.90
95 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (93 bp):
AATTGAAAGCCAAAAGAAAGTAATATGCTCTTATCTAGCACTAAAATGATTTAGAACTTACATAA
GTTAATGATATTAGAGGCTAAAAAATAA
Found at i:6585246 original size:2 final size:2
Alignment explanation
Indices: 6585239--6585264 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6585229 GTTTTTATTT
6585239 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6585265 AAGCCTACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6588389 original size:16 final size:17
Alignment explanation
Indices: 6588368--6588404 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
6588358 GTTGAAGCAT
6588368 ATTTTTAAT-ATTTTTA
1 ATTTTTAATAATTTTTA
6588384 ATTTTTAATAAATTTTTA
1 ATTTTTAAT-AATTTTTA
6588402 ATT
1 ATT
6588405 AAATTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTAATAATTTTTA
Found at i:6589493 original size:18 final size:18
Alignment explanation
Indices: 6589452--6589492 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6589442 TATATTTTTT
* *
6589452 TAAATATATTAATTACTA
1 TAAAAATATTAATTACAA
6589470 TAAAAATATTAA-TACAA
1 TAAAAATATTAATTACAA
6589487 TAAAAA
1 TAAAAA
6589493 AATTCTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAATATTAATTACAA
Found at i:6590457 original size:2 final size:2
Alignment explanation
Indices: 6590444--6590474 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6590434 TCATGTTGAC
*
6590444 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6590475 AATTTTGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6592827 original size:204 final size:200
Alignment explanation
Indices: 6592617--6593284 Score: 750
Period size: 204 Copynumber: 3.4 Consensus size: 200
6592607 ATTCGGTACA
* * *
6592617 TTCATTTAAAACACAACAAAATACAATAAAAATGATACCTGA-GTGTATTCAATAGTTATAAATA
1 TTCATTTAAAACACGACAAAATACAATAAAAATAATATCT-ATGTGTATTCAATAGTTATAAAT-
*
6592681 AAAAAGAAGAATTTATTTGTTGTAAAATTTATTTAAATTTTTAGTGAACATTAACATATACAAAA
64 AAAAAGAAGAATTTGTTTGTTGTAAAATTTATTTAAATTTTTAGTGAACATTAACATATACAAAA
*
6592746 GTCTTATTCATCAAAGCTTAAAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAAC
129 G-CTTATTCA-CAAAGCTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAAC
6592811 GTTTCGT-TCT
192 -TTTCGTGT-T
*
6592821 TTCATTTAAAACACGACAAAATACAATAAAAATAATATCTATGTGTATTTAATAGTTATAAATAA
1 TTCATTTAAAACACGACAAAATACAATAAAAATAATATCTATGTGTATTCAATAGTTATAAATAA
* *
6592886 AAAGAAGAATTTGTTTGTTGTTAAATTTATTTAATTTTTTAGTGAA-AGTTAACATATAC---A-
66 AAAGAAGAATTTGTTTGTTGTAAAATTTATTTAAATTTTTAGTGAACA-TTAACATATACAAAAG
* * *
6592946 --TA---A-AAA-CTTAGGAAGATG-TCAAAATTTAAAATTAACTCGTATCTTTCTTGAAACATT
130 CTTATTCACAAAGCTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACTTT
6593003 C-TGTT
195 CGTGTT
* ** * *
6593008 TTCACTTAAAACACGGTAAAATATAATAAAAATAATA--TATGTGCA-TCTAATAGTTATAAATA
1 TTCATTTAAAACACGACAAAATACAATAAAAATAATATCTATGTGTATTC-AATAGTTATAAATA
* ** ** *
6593070 AAAAGAATAACCTGTTTGTTG-CCAATTTAATTTAAATTTTCAGTGAACATTAACATATACAAAA
65 AAAAGAAGAATTTGTTTGTTGTAAAATTT-ATTTAAATTTTTAGTGAACATTAACATATACAAAA
* * * * *
6593134 GCCTTGTTCAACAAAGCTTAGAAATATGTTCAAAATTTAAAAGTAACTTATATCTTTCTTAAAAC
129 G-CTTATTC-ACAAAGCTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAAC
6593199 ATTAT-GTGTTT
192 -TT-TCGTG-TT
* * * * *
6593210 TTCATTTAAAACACGATAAAATATAATAAAAATGATATCTATGTGTATTTAATAGCTACT-AATA
1 TTCATTTAAAACACGACAAAATACAATAAAAATAATATCTATGTGTATTCAATAGTTA-TAAAT-
6593274 AAAAAGAAGAA
64 AAAAAGAAGAA
6593285 GGTTAACATA
Statistics
Matches: 396, Mismatches: 39, Indels: 57
0.80 0.08 0.12
Matches are distributed among these distances:
184 6 0.02
185 66 0.17
186 1 0.00
187 35 0.09
188 5 0.01
189 35 0.09
190 10 0.03
191 3 0.01
192 1 0.00
193 1 0.00
196 3 0.01
197 3 0.01
198 10 0.03
199 32 0.08
200 2 0.01
201 3 0.01
202 37 0.09
203 57 0.14
204 74 0.19
205 12 0.03
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.36
Consensus pattern (200 bp):
TTCATTTAAAACACGACAAAATACAATAAAAATAATATCTATGTGTATTCAATAGTTATAAATAA
AAAGAAGAATTTGTTTGTTGTAAAATTTATTTAAATTTTTAGTGAACATTAACATATACAAAAGC
TTATTCACAAAGCTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACTTTC
GTGTT
Found at i:6593125 original size:185 final size:189
Alignment explanation
Indices: 6592768--6593284 Score: 521
Period size: 185 Copynumber: 2.7 Consensus size: 189
6592758 AAAGCTTAAA
* *
6592768 AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACGTTTCGTTCTTTCATTTAAAAC
1 AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTCGTTCTTTCACTTAAAAC
* * **
6592833 ACGACAAAATACAATAAAAATAATATCTATGTGTATTTAATAGTTATAAATAAAAAGAAGAATTT
66 ACGACAAAATACAATAAAAATAATA-CTATGTGCATCTAATAGTTATAAATAAAAAGAAGAACCT
* * *
6592898 GTTTGTTGTTAAATTTATTTAATTTTTTAGTGAAAGTTAACATATACATAAAAACTTAGG
130 GTTTGTTGTCAAATTTATTTAAATTTTCAGTGAAAGTTAACATATACATAAAAACTTAGG
*
6592958 AAGATG-TCAAAATTTAAAATTAACTCGTATCTTTCTTGAAACA-TTC-TGT-TTTCACTTAAAA
1 AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTCGT-TCTTTCACTTAAAA
** * *
6593019 CACGGTAAAATATAATAAAAATAATA-TATGTGCATCTAATAGTTATAAATAAAAAGAATAACCT
65 CACGACAAAATACAATAAAAATAATACTATGTGCATCTAATAGTTATAAATAAAAAGAAGAACCT
*
6593083 GTTTGTTG-CCAATTTAATTTAAATTTTCAGTGAACA-TTAACATATACAAAAGCCTTGTTCAAC
130 GTTTGTTGTCAAATTT-ATTTAAATTTTCAGTGAA-AGTTAACATATAC---A-------T-AA-
*
6593146 AAAGCTTAGA
181 AAA-CTTAGG
* * * * * *
6593156 AATATGTTCAAAATTTAAAAGTAACTTATATCTTTCTTAAAACATTAT-GTGTTTTTCATTTAAA
1 AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATT-TCGT-TCTTTCACTTAAA
* * * * * *
6593220 ACACGATAAAATATAATAAAAATGATATCTATGTGTATTTAATAGCTACT-AATAAAAAAGAAGA
64 ACACGACAAAATACAATAAAAATAATA-CTATGTGCATCTAATAGTTA-TAAAT-AAAAAGAAGA
6593284 A
126 A
6593285 GGTTAACATA
Statistics
Matches: 274, Mismatches: 28, Indels: 35
0.81 0.08 0.10
Matches are distributed among these distances:
184 5 0.02
185 68 0.25
186 1 0.00
187 35 0.13
188 5 0.02
189 35 0.13
190 6 0.02
195 1 0.00
196 2 0.01
197 3 0.01
198 10 0.04
199 33 0.12
200 1 0.00
201 4 0.01
202 35 0.13
204 19 0.07
205 11 0.04
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (189 bp):
AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTCGTTCTTTCACTTAAAAC
ACGACAAAATACAATAAAAATAATACTATGTGCATCTAATAGTTATAAATAAAAAGAAGAACCTG
TTTGTTGTCAAATTTATTTAAATTTTCAGTGAAAGTTAACATATACATAAAAACTTAGG
Found at i:6593654 original size:546 final size:545
Alignment explanation
Indices: 6592795--6593806 Score: 1417
Period size: 546 Copynumber: 1.9 Consensus size: 545
6592785 AAATTAACTC
* *
6592795 ATATCTTTCTTGAAACGTTTCGTTCTTTCATTTAAAACACGACAAAATACAATAAAAATAATATC
1 ATATCTTTCTTGAAACGTTTCATTATTTCATTTAAAACACGACAAAATACAATAAAAATAATATC
** * * * * * *
6592860 TATGTGTATTTAATAGTTATAAATAAAAAGAAGAATTTGTTTGTTGTTAAATTTATTTAATTTTT
66 TATACGTATTTAATAATTATAAATAAAAAGAAGAAATTATTTGTTGTCAAATTCATTTAAATTTT
* * * * * *
6592925 TAGTGAAAGTTAACATATACATAAAAACTTAGGAAGATGTCAAAATTTAAAATTAACTCGTATCT
131 CAATGAAAGTTAACATATACATAAAAACTTAGGAAGATGTAAAAATATAAAATTAACTCATATAT
* ** *
6592990 TTCTTGAAACATTCTGTTTTCACTTAAAACACGGTAAAATATAATAAAAATAATATATGTGCATC
196 TTCTTGAAACATTATGTTTTCACTTAAAACACGACAAAATACAATAAAAATAATATATGTGCATC
* *
6593055 TAATAGTTATAAATAAAAAGAATAACCTGTTTGTTGCCAATTTAATTTAAATTTTCAGTGAACAT
261 TAATAGTTATAAATAAAAAGAATAACCTGATTGTTGCCAATTTAATTTAAATTTCCAGTGAACAT
* * * * *
6593120 TAACATATACAAAAGCCTTGTTCAACAAAGCTTAGAAATATGTTCAAAATTTAAAAGTAACTTAT
326 TAACATATACAAAACCCTTGCTCAACAAAACTTAGAAAGATGTTCAAAATTTAAAAGTAAC-T-C
* * * *
6593185 ATCTTTCTTAAAACATTAT-GTGTTTTTCATTTAAAACACGATAAAATATAATAAAAATGATATC
389 ATCTTTCTTAAAACATT-TCGTG-CTTTCATTTAAAACACGAAAAAATACAATAAAAATGACATC
*
6593249 TATGTGTATTTAATAGCTACTAATAAAAAAGAAGAAGGTTAACATATACAAAAGTTTTATTCATC
452 TATATGTATTTAATAGCTACTAATAAAAAAGAAGAAGGTTAACATATACAAAAGTTTTATTCATC
6593314 GAAAGATGTTAAAAAAGAAAAAAGCACTA
517 GAAAGATGTTAAAAAAGAAAAAAGCACTA
*
6593343 ATATCTTTCTTGAAACG-TTCTATTATTTCATTTAAAACACGACAAAATACAATAAAAATGATAT
1 ATATCTTTCTTGAAACGTTTC-ATTATTTCATTTAAAACACGACAAAATACAATAAAAATAATAT
6593407 -T-TACGTATTTAATAATTATAAATAAAAAGAA-AAATTATTTGTTGTCAAATTCATTTAAATTT
65 CTATACGTATTTAATAATTATAAATAAAAAGAAGAAATTATTTGTTGTCAAATTCATTTAAATTT
* * *
6593469 TCAATGAATGTTAACATATGCA-AAAAACTTATGAAGATGTTAAAAATAT-AAATTAACTCATAT
130 TCAATGAAAGTTAACATATACATAAAAACTTAGGAAGATG-TAAAAATATAAAATTAACTCATAT
* * * *
6593532 ATTTCTTGAAACATTATGTTTTCATTTGAAACACGACAAAATACAATAAAAATGATATCTTTGTG
194 ATTTCTTGAAACATTATGTTTTCACTTAAAACACGACAAAATACAATAAAAAT-A-ATATATGTG
* * * * *
6593597 TATTTAATAGTTATAAATAAAAAGAATAATCTGATTGTTGCCAATTTTATTTAAATTTCCGGTGA
257 CATCTAATAGTTATAAATAAAAAGAATAACCTGATTGTTGCCAATTTAATTTAAATTTCCAGTGA
* ** *
6593662 ACGTTAACATATACAAAACCCTTGCTCTTCAAAACTTAGAAAGATGTTCAAAATTTAAAATTAAC
322 ACATTAACATATACAAAACCCTTGCTCAACAAAACTTAGAAAGATGTTCAAAATTTAAAAGTAAC
* * * *
6593727 TCATCTTTCTTGAAACGTTTCGTGCTTTCATTTAAGACATGAAAAAATACAATAAAAATGACATC
387 TCATCTTTCTTAAAACATTTCGTGCTTTCATTTAAAACACGAAAAAATACAATAAAAATGACATC
*
6593792 TGTATGTATTTAATA
452 TATATGTATTTAATA
6593807 CTTATAAAAA
Statistics
Matches: 405, Mismatches: 54, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
543 49 0.12
544 93 0.23
545 53 0.13
546 149 0.37
547 4 0.01
548 57 0.14
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (545 bp):
ATATCTTTCTTGAAACGTTTCATTATTTCATTTAAAACACGACAAAATACAATAAAAATAATATC
TATACGTATTTAATAATTATAAATAAAAAGAAGAAATTATTTGTTGTCAAATTCATTTAAATTTT
CAATGAAAGTTAACATATACATAAAAACTTAGGAAGATGTAAAAATATAAAATTAACTCATATAT
TTCTTGAAACATTATGTTTTCACTTAAAACACGACAAAATACAATAAAAATAATATATGTGCATC
TAATAGTTATAAATAAAAAGAATAACCTGATTGTTGCCAATTTAATTTAAATTTCCAGTGAACAT
TAACATATACAAAACCCTTGCTCAACAAAACTTAGAAAGATGTTCAAAATTTAAAAGTAACTCAT
CTTTCTTAAAACATTTCGTGCTTTCATTTAAAACACGAAAAAATACAATAAAAATGACATCTATA
TGTATTTAATAGCTACTAATAAAAAAGAAGAAGGTTAACATATACAAAAGTTTTATTCATCGAAA
GATGTTAAAAAAGAAAAAAGCACTA
Found at i:6593958 original size:201 final size:200
Alignment explanation
Indices: 6593518--6594026 Score: 656
Period size: 199 Copynumber: 2.5 Consensus size: 200
6593508 TTAAAAATAT
* * *
6593518 AAATTAACTCATATATTTCTTGAAACATT-ATGT-TTTCATTTGAAACACGACAAAATACAATAA
1 AAATTAACTCATATATTTCTTGAAACGTTCAT-TCTTTCATTT-AAACATGAAAAAATACAATAA
*
6593581 AAATGATATCTTTGTGTATTTAATAGTTATAAATAAAAAGAATAATCTGATTGTTGCCAATTTTA
64 AAATGATATCTGT-TGTATTTAATAGTTATAAATAAAAAGAATAATCTGATTGTTGCCAATTTTA
* * * * * *
6593646 TTTAAATTTCCGGTGAACGTTAACATATACAAAACCCTTGCTCTTCAAAACTTAGAAAGATGTTC
128 TTTAAAATTCCAGTGAACGTTAACATATACAAAACCATTGCTCATCAAAACATAGAAAGATATTC
6593711 AAAATTTA
193 AAAATTTA
* * *
6593719 AAATTAACTC--ATCTTTCTTGAAACGTTTCGTGCTTTCATTTAAGACATGAAAAAATACAATAA
1 AAATTAACTCATATATTTCTTGAAACG-TTCATTCTTTCATTTAA-ACATGAAAAAATACAATAA
* * * *
6593782 AAATGACATCTGTATGTATTTAATACTTATAAA-AAAAGAGGA-AAT-TGTTTGTTGCCAATTTT
64 AAATGATATCTGT-TGTATTTAATAGTTATAAATAAAA-AGAATAATCTGATTGTTGCCAATTTT
* * *
6593844 ATTTAAAATTCTAGTGAATGTTAACATATACAAAAGCATTGCTCATCAAAACATAGAAAGATATT
127 ATTTAAAATTCCAGTGAACGTTAACATATACAAAACCATTGCTCATCAAAACATAGAAAGATATT
*
6593909 CAAAATTTC
192 CAAAATTTA
* * *
6593918 AAATTAACTCATATATTTTTTGAAACGTTCCATTCTTTCATTTAAAACATGATAAAATATAATAA
1 AAATTAACTCATATATTTCTTGAAACGTT-CATTCTTTCATTT-AAACATGAAAAAATACAATAA
*
6593983 AAATGATATATG-TGTATTTAATAGTTATAAATAAAAAGAATAAT
64 AAATGATATCTGTTGTATTTAATAGTTATAAATAAAAAGAATAAT
6594027 TTGTTTTGTT
Statistics
Matches: 265, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
199 124 0.47
200 20 0.08
201 119 0.45
202 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (200 bp):
AAATTAACTCATATATTTCTTGAAACGTTCATTCTTTCATTTAAACATGAAAAAATACAATAAAA
ATGATATCTGTTGTATTTAATAGTTATAAATAAAAAGAATAATCTGATTGTTGCCAATTTTATTT
AAAATTCCAGTGAACGTTAACATATACAAAACCATTGCTCATCAAAACATAGAAAGATATTCAAA
ATTTA
Found at i:6594449 original size:174 final size:173
Alignment explanation
Indices: 6594159--6594477 Score: 523
Period size: 174 Copynumber: 1.8 Consensus size: 173
6594149 TTAGTTTAAA
* * *
6594159 TTTAGTTTAAAATACGACAAAATATAATAAAAATGATATCTTTACTCATTAAATAGTCATAAATA
1 TTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTACGCATTAAATAGTCATAAATA
6594224 AAATAAAGAATTTATTTAAATTTCTAGTGAACGTTTAACAAATACATCAAACTTAAAAAGATATT
66 AAATAAAGAATTTATTTAAATTTCTAGTGAACGTTTAACAAATACATCAAACTT-AAAAGATATT
*
6594289 TAAAATTTAAAATTAACTCATTTCGTTTTTGAAACGTTCCGTGC
130 CAAAATTTAAAATTAACTCATTTCGTTTTTGAAACGTTCCGTGC
* *
6594333 TTTAGTTTAAAATACTACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAATA
1 TTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTACGCATTAAATAGTCATAAATA
* * * *
6594398 AAATGAAGAGTTTATTTAAACTTT-TAGTGAACGTTTAACATATACATCAAACTTAAAAGATGTT
66 AAATAAAGAATTTATTTAAA-TTTCTAGTGAACGTTTAACAAATACATCAAACTTAAAAGATATT
6594462 CAAAATTTAAAATTAA
130 CAAAATTTAAAATTAA
6594478 GCTTTAGTTT
Statistics
Matches: 134, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
173 24 0.18
174 107 0.80
175 3 0.02
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (173 bp):
TTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTACGCATTAAATAGTCATAAATA
AAATAAAGAATTTATTTAAATTTCTAGTGAACGTTTAACAAATACATCAAACTTAAAAGATATTC
AAAATTTAAAATTAACTCATTTCGTTTTTGAAACGTTCCGTGC
Found at i:6594598 original size:147 final size:148
Alignment explanation
Indices: 6594331--6594625 Score: 556
Period size: 147 Copynumber: 2.0 Consensus size: 148
6594321 AACGTTCCGT
*
6594331 GCTTTAGTTTAAAATACTACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
1 GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
*
6594396 TAAAATGAAGAGTTTATTTAAACTTTTAGTGAACGTTTAACATATACATCAAACTT-AAAAGATG
66 TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATCAAACTTAAAAAGATG
6594460 TTCAAAATTTAAAATTAA
131 TTCAAAATTTAAAATTAA
6594478 GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
1 GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
*
6594543 TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATTAAACTTAAAAAGATG
66 TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATCAAACTTAAAAAGATG
6594608 TTCAAAATTTAAAATTAA
131 TTCAAAATTTAAAATTAA
6594626 CTCATTTTGT
Statistics
Matches: 144, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
147 118 0.82
148 26 0.18
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (148 bp):
GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATCAAACTTAAAAAGATG
TTCAAAATTTAAAATTAA
Found at i:6594948 original size:174 final size:174
Alignment explanation
Indices: 6594478--6595100 Score: 1021
Period size: 174 Copynumber: 3.6 Consensus size: 174
6594468 TTAAAATTAA
6594478 GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
1 GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
6594543 TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATTAAACTTAAAAAGATG
66 TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATTAAACTTAAAAAGATG
6594608 TTCAAAATTTAAAATTAACTCATTTTGTTTTTGAAACGTTCTGT
131 TTCAAAATTTAAAATTAACTCATTTTGTTTTTGAAACGTTCTGT
* * *
6594652 GCTTTTAGTTTAAAATACGACAAAATATAATAAAAATGATATCTGTGCGCATTAAATACTCAGAA
1 GC-TTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAA
6594717 ATAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATTAAACTTAAAAAGAT
65 ATAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATTAAACTTAAAAAGAT
*
6594782 GTTCAAAATTTAAAATTAACTCATTTTGTTTTTGAAACGTTATGT
130 GTTCAAAATTTAAAATTAACTCATTTTGTTTTTGAAACGTTCTGT
* * *
6594827 GCTTTAGTTTAAAATACGACAAAATATAATAAAAACAATATTTGTGCTCATTAAATAGTCATAAA
1 GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
* * *
6594892 TAAAATGAAGAGTTTATTTAAACTTTCAATGAATGTTTAACATATACATCAAACTTAAAAAGATG
66 TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATTAAACTTAAAAAGATG
* * * **
6594957 TTTAAAATTTAAAATTAACTCATTTCGTTTTTGAAATGTTCCAT
131 TTCAAAATTTAAAATTAACTCATTTTGTTTTTGAAACGTTCTGT
* * * *
6595001 ACTTTAGTTTAAAATACAACAAAATATAATAAAAACGATATCTATGTGCATTAAATAGTCATAAA
1 GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
* * * * *
6595066 TAAAATAAAAAATTTATTTAAATTTTCAGTAAACG
66 TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACG
6595101 CTCAATATAT
Statistics
Matches: 415, Mismatches: 33, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
174 245 0.59
175 170 0.41
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (174 bp):
GCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAGTCATAAA
TAAAATGAAGAGTTTATTTAAACTTTCAGTGAACGTTTAACATATACATTAAACTTAAAAAGATG
TTCAAAATTTAAAATTAACTCATTTTGTTTTTGAAACGTTCTGT
Found at i:6596120 original size:2 final size:2
Alignment explanation
Indices: 6596115--6596144 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6596105 AAAAAAGCAG
*
6596115 CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6596145 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:6607651 original size:17 final size:18
Alignment explanation
Indices: 6607629--6607665 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
6607619 TTTAATTTAA
6607629 TTTAAATAA-ATT-TATTT
1 TTTAAA-AATATTATATTT
6607646 TTTAAAAATATTATATTT
1 TTTAAAAATATTATATTT
6607664 TT
1 TT
6607666 CATACATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 9 0.50
18 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAAAAATATTATATTT
Found at i:6618069 original size:12 final size:12
Alignment explanation
Indices: 6618052--6618080 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6618042 TTCAAACAGA
6618052 AAAAAAAAAAAG
1 AAAAAAAAAAAG
6618064 AAAAAAAAAAAG
1 AAAAAAAAAAAG
6618076 AAAAA
1 AAAAA
6618081 GAGGTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:6619606 original size:6 final size:6
Alignment explanation
Indices: 6619599--6619646 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
6619589 TTTCCAACCT
*
6619599 GCACCT GCACCC GCACCC GCACCC GCACCC GCACCC GCACCC GCACCC
1 GCACCC GCACCC GCACCC GCACCC GCACCC GCACCC GCACCC GCACCC
6619647 TTCTCTCTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.65, G:0.17, T:0.02
Consensus pattern (6 bp):
GCACCC
Found at i:6633835 original size:33 final size:33
Alignment explanation
Indices: 6633793--6633860 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
6633783 AGGCCAAAGG
6633793 TTATGTTATCTGCAGAGGTAAAAGCAACTAAGT
1 TTATGTTATCTGCAGAGGTAAAAGCAACTAAGT
6633826 TTATGTTATCTGCAGAGGTAAAAGCAACTAAGT
1 TTATGTTATCTGCAGAGGTAAAAGCAACTAAGT
6633859 TT
1 TT
6633861 TGGTCTACCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (33 bp):
TTATGTTATCTGCAGAGGTAAAAGCAACTAAGT
Found at i:6637968 original size:18 final size:18
Alignment explanation
Indices: 6637933--6637970 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6637923 CAATTACAGT
*
6637933 AACTTAATGATCACGAAA
1 AACTTAATCATCACGAAA
6637951 AACTTGAATCATCA-GAAA
1 AACTT-AATCATCACGAAA
6637969 AA
1 AA
6637971 GTGACACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (18 bp):
AACTTAATCATCACGAAA
Found at i:6642242 original size:40 final size:40
Alignment explanation
Indices: 6642187--6642264 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
6642177 GCATTTGAGT
* * *
6642187 GAAAATTGTATAATTTAGCCAGATGAAGTATGTATTAATA
1 GAAAACTGTACAATTTAGCCAGATAAAGTATGTATTAATA
*
6642227 GAAAACTGTACAATTTAGCCGGATAAAGTATGTATTAA
1 GAAAACTGTACAATTTAGCCAGATAAAGTATGTATTAA
6642265 CAGATATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (40 bp):
GAAAACTGTACAATTTAGCCAGATAAAGTATGTATTAATA
Found at i:6642981 original size:46 final size:44
Alignment explanation
Indices: 6642888--6642981 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
6642878 ATTACAACAT
*
6642888 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
***
6642932 CATTCCATTCAACCAAACAGTTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGCTCTATTC
6642978 CATT
1 CATT
6642982 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.50
45 3 0.07
46 19 0.43
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:6642984 original size:16 final size:16
Alignment explanation
Indices: 6642963--6643017 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
6642953 TGAATTACTT
6642963 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
6642979 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
6642995 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
6643011 ATTACAG
1 ATTACAG
6643018 TGAATCAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 1 0.03
16 35 0.97
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:6643228 original size:18 final size:19
Alignment explanation
Indices: 6643197--6643233 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
6643187 ATTCATTATT
6643197 TATTTTTTGAAATTATAAAA
1 TATTTTTT-AAATTATAAAA
6643217 TATTTTTT-AATTATAAA
1 TATTTTTTAAATTATAAA
6643234 TATGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATTTTTTAAATTATAAAA
Found at i:6647449 original size:6 final size:6
Alignment explanation
Indices: 6647440--6647469 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6647430 TTTTCATTTG
*
6647440 TGCTTT TGCTTT TGCTTT TGCTTT TCCTTT
1 TGCTTT TGCTTT TGCTTT TGCTTT TGCTTT
6647470 GTTTTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.20, G:0.13, T:0.67
Consensus pattern (6 bp):
TGCTTT
Found at i:6648856 original size:9 final size:9
Alignment explanation
Indices: 6648844--6648877 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6648834 GCAGCGTCAC
*
6648844 CAGCAGCAG
1 CAGCAGCAA
6648853 CAGCAGCAA
1 CAGCAGCAA
*
6648862 CAACAGCAA
1 CAGCAGCAA
6648871 CAGCAGC
1 CAGCAGC
6648878 CCAAACCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.35, G:0.24, T:0.00
Consensus pattern (9 bp):
CAGCAGCAA
Found at i:6659283 original size:3 final size:3
Alignment explanation
Indices: 6659270--6659310 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6659260 AATTTAAAAC
*
6659270 AAG AGG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
6659311 AGGGAGATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6669708 original size:3 final size:3
Alignment explanation
Indices: 6669695--6669725 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
6669685 TAGATTACAC
6669695 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
6669726 GGTGGAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6672305 original size:22 final size:22
Alignment explanation
Indices: 6672256--6672304 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
6672246 TAAAAATAAT
*
6672256 TAAAATTAAATTAAATTAACAA
1 TAAAATTAAATTAAATTAAAAA
*
6672278 TAAAATTACATTAAATTAAAAAA
1 TAAAATTAAATTAAATT-AAAAA
6672301 TAAA
1 TAAA
6672305 TACTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATTAAATTAAATTAAAAA
Found at i:6674792 original size:13 final size:12
Alignment explanation
Indices: 6674766--6674791 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6674756 AGGAGAAAAC
6674766 AATTTTTTTTAA
1 AATTTTTTTTAA
6674778 AATTTTTTTTAA
1 AATTTTTTTTAA
6674790 AA
1 AA
6674792 AAGTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTTTTTTTAA
Found at i:6680321 original size:21 final size:23
Alignment explanation
Indices: 6680273--6680315 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
6680263 ACATGCACAT
6680273 ATATATAAATAAAAGTATTAGAA
1 ATATATAAATAAAAGTATTAGAA
*
6680296 ATATAT-AATATAA-TATTAGA
1 ATATATAAATAAAAGTATTAGA
6680316 GGTATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
ATATATAAATAAAAGTATTAGAA
Found at i:6680331 original size:33 final size:34
Alignment explanation
Indices: 6680294--6680368 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 34
6680284 AAAGTATTAG
**
6680294 AAATATATAATA-TAATATTAGAGGTATACATA-A
1 AAATATATAATAGTAATATTA-AAATATACATATA
* *
6680327 AAATATA-ACTAGTAATATTAAAATATATATATA
1 AAATATATAATAGTAATATTAAAATATACATATA
6680360 AAATATATA
1 AAATATATA
6680369 TTAAAAGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 11 0.31
33 23 0.66
34 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (34 bp):
AAATATATAATAGTAATATTAAAATATACATATA
Found at i:6680367 original size:11 final size:12
Alignment explanation
Indices: 6680341--6680374 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
6680331 ATAACTAGTA
6680341 ATATTAAAATAT
1 ATATTAAAATAT
6680353 ATATATAAAATAT
1 ATAT-TAAAATAT
6680366 ATATTAAAA
1 ATATTAAAA
6680375 GACTTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATTAAAATAT
Found at i:6680371 original size:25 final size:26
Alignment explanation
Indices: 6680341--6680394 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
6680331 ATAACTAGTA
*
6680341 ATATTAAAATA-TATATATAAAATAT
1 ATATTAAAAGACTATATATAAAATAT
*
6680366 ATATTAAAAGACTTATATATAACATAT
1 ATATTAAAAGAC-TATATATAAAATAT
6680393 AT
1 AT
6680395 GAAAAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.40
27 15 0.60
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (26 bp):
ATATTAAAAGACTATATATAAAATAT
Found at i:6680410 original size:25 final size:25
Alignment explanation
Indices: 6680346--6680410 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
6680336 TAGTAATATT
* * * *
6680346 AAAATATATATATAAAATATATATTA
1 AAAACATATA-ATATAACATATATGA
*
6680372 AAAGACTTAT-ATATAACATATATGA
1 AAA-ACATATAATATAACATATATGA
6680397 AAAACATATAATAT
1 AAAACATATAATAT
6680411 TAAACATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
24 5 0.16
25 19 0.61
26 3 0.10
27 4 0.13
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (25 bp):
AAAACATATAATATAACATATATGA
Found at i:6682840 original size:2 final size:2
Alignment explanation
Indices: 6682835--6682860 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6682825 ATCTCTCCAC
6682835 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6682861 GTTTTTGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6683224 original size:19 final size:19
Alignment explanation
Indices: 6683189--6683232 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6683179 TTATTAGGAA
*
6683189 AAATTATAAACAATATTTT
1 AAATTATAAAAAATATTTT
6683208 AAATT-TAAAAAATTATTTT
1 AAATTATAAAAAA-TATTTT
*
6683227 TAATTA
1 AAATTA
6683233 GTATTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTATAAAAAATATTTT
Found at i:6684108 original size:31 final size:29
Alignment explanation
Indices: 6684070--6684135 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 29
6684060 AAATTTGAAT
6684070 TAATAAAAA-TACATTTTAATCTTCTTAAAAA
1 TAATAAAAATTA-A-TTTAAT-TTCTTAAAAA
*
6684101 TAATAAAAATTAATTTAATTTTTTAAAAA
1 TAATAAAAATTAATTTAATTTCTTAAAAA
6684130 T-ATAAA
1 TAATAAA
6684136 GATATAAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 5 0.15
29 10 0.30
30 6 0.18
31 10 0.30
32 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (29 bp):
TAATAAAAATTAATTTAATTTCTTAAAAA
Done.